{
  "_id": "6a107716acfb0bcc41cacdc0",
  "Package": "rworkflows",
  "Type": "Package",
  "Title": "Test, Document, Containerise, and Deploy R Packages",
  "Version": "1.0.12",
  "Authors@R": "c(person(given = \"Brian\",\nfamily = \"Schilder\",\nrole = c(\"aut\"),\nemail = \"brian_schilder@alumni.brown.edu\",\ncomment = c(ORCID = \"0000-0001-5949-2191\")),\nperson(given = \"Alan\",\nfamily = \"Murphy\",\nrole = c(\"aut\",\"ctb\"),\nemail = \"alanmurph94@hotmail.com\",\ncomment = c(ORCID = \"0000-0002-2487-8753\")),\nperson(given = \"Hiranyamaya (Hiru)\",\nfamily = \"Dash\",\nrole = c(\"ctb\",\"cre\"),\nemail = \"hdash.work@gmail.com\",\ncomment = c(ORCID = \"0009-0005-5514-505X\")),\nperson(given = \"Nathan\",\nfamily = \"Skene\",\nrole = c(\"aut\"),\nemail = \"n.skene@imperial.ac.uk\",\ncomment = c(ORCID = \"0000-0002-6807-3180\")))",
  "Description": "Reproducibility is essential to the progress of research,\nyet achieving it remains elusive even in computational fields.\nContinuous Integration (CI) platforms offer a powerful way to\nlaunch automated workflows to check and document code, but\noften require considerable time, effort, and technical\nexpertise to setup. We therefore developed the rworkflows suite\nto make robust CI workflows easy and freely accessible to all R\npackage developers. rworkflows consists of 1) a\nCRAN/Bioconductor-compatible R package template, 2) an R\npackage to quickly implement a standardised workflow, and 3) a\ncentrally maintained GitHub Action.",
  "URL": "https://github.com/neurogenomics/rworkflows,\nhttps://CRAN.R-project.org/package=rworkflows",
  "BugReports": "https://github.com/neurogenomics/rworkflows/issues",
  "Encoding": "UTF-8",
  "biocViews": "Software, WorkflowManagement",
  "VignetteBuilder": "knitr",
  "License": "GPL-3",
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  "RoxygenNote": "7.3.3",
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  "Repository": "https://neurogenomics.r-universe.dev",
  "Date/Publication": "2026-05-06 09:06:52 UTC",
  "RemoteUrl": "https://github.com/neurogenomics/rworkflows",
  "RemoteRef": "HEAD",
  "RemoteSha": "6aaf49348859a96eea744b1907b1fe850e3ead5e",
  "NeedsCompilation": "no",
  "Packaged": {
    "Date": "2026-05-06 11:07:41 UTC",
    "User": "root"
  },
  "Author": "Brian Schilder [aut] (ORCID: <https://orcid.org/0000-0001-5949-2191>),\nAlan Murphy [aut, ctb] (ORCID: <https://orcid.org/0000-0002-2487-8753>),\nHiranyamaya (Hiru) Dash [ctb, cre] (ORCID:\n<https://orcid.org/0009-0005-5514-505X>),\nNathan Skene [aut] (ORCID: <https://orcid.org/0000-0002-6807-3180>)",
  "Maintainer": "Hiranyamaya (Hiru) Dash <hdash.work@gmail.com>",
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  "_user": "neurogenomics",
  "_type": "src",
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  "_created": "2026-05-06T11:07:41.000Z",
  "_published": "2026-05-22T15:32:38.787Z",
  "_distro": "noble",
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  "_dependencies": [
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      "role": "Imports"
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      "role": "Suggests"
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      "role": "Suggests"
    }
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  "_selfowned": true,
  "_usedby": 0,
  "_updates": [
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      "n": 2
    },
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    },
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      "date": "2026-03-23"
    },
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      "date": "2026-03-23"
    },
    {
      "name": "v1.0.12",
      "date": "2026-05-06"
    }
  ],
  "_topics": [
    "software",
    "workflowmanagement",
    "bioconductor",
    "containers",
    "continuous-integration",
    "docker",
    "dockerhub",
    "github-actions",
    "reproducibility",
    "workflows"
  ],
  "_stars": 90,
  "_contributors": [
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      "count": 589,
      "uuid": 34280215
    },
    {
      "user": "hdash",
      "count": 88,
      "uuid": 16350928
    },
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    },
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    },
    {
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      "count": 1,
      "uuid": 4196
    }
  ],
  "_userbio": {
    "uuid": 48588661,
    "type": "organization",
    "name": "Neurogenomics Lab",
    "description": "Neurogenomics Lab, UK Dementia Research Institute at Imperial College London "
  },
  "_downloads": {
    "count": 671,
    "source": "https://cranlogs.r-pkg.org/downloads/total/last-month/rworkflows"
  },
  "_devurl": "https://github.com/neurogenomics/rworkflows",
  "_searchresults": 6,
  "_rbuild": "4.6.0",
  "_assets": [
    "extra/citation.cff",
    "extra/citation.html",
    "extra/citation.json",
    "extra/citation.txt",
    "extra/contents.json",
    "extra/NEWS.html",
    "extra/NEWS.txt",
    "extra/readme.html",
    "extra/readme.md",
    "extra/rworkflows.html",
    "manual.pdf"
  ],
  "_homeurl": "https://github.com/neurogenomics/rworkflows",
  "_realowner": "neurogenomics",
  "_cranurl": true,
  "_releases": [
    {
      "version": "0.99.3",
      "date": "2022-12-21"
    },
    {
      "version": "0.99.5",
      "date": "2023-01-14"
    },
    {
      "version": "0.99.12",
      "date": "2023-08-26"
    },
    {
      "version": "0.99.13",
      "date": "2023-09-14"
    },
    {
      "version": "1.0.0",
      "date": "2023-11-02"
    },
    {
      "version": "1.0.1",
      "date": "2024-01-18"
    },
    {
      "version": "1.0.2",
      "date": "2024-09-22"
    },
    {
      "version": "1.0.6",
      "date": "2025-01-23"
    },
    {
      "version": "1.0.8",
      "date": "2026-01-09"
    },
    {
      "version": "1.0.10",
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    },
    {
      "version": "1.0.11",
      "date": "2026-03-26"
    },
    {
      "version": "1.0.12",
      "date": "2026-05-05"
    }
  ],
  "_exports": [
    "bioc_r_versions",
    "conda_export",
    "construct_authors",
    "construct_conda_yml",
    "construct_cont",
    "construct_runners",
    "dt_to_desc",
    "fill_description",
    "get_description",
    "get_hex",
    "infer_biocviews",
    "infer_deps",
    "infer_docker_org",
    "is_gha",
    "use_badges",
    "use_codespace",
    "use_dockerfile",
    "use_issue_template",
    "use_readme",
    "use_vignette_docker",
    "use_vignette_getstarted",
    "use_workflow"
  ],
  "_datasets": [
    {
      "name": "biocpkgtools_db",
      "title": "Static Bioc packages list",
      "object": "biocpkgtools_db",
      "class": [
        "data.table",
        "data.frame"
      ],
      "fields": [
        "r_repo",
        "Package",
        "Version",
        "Depends",
        "Suggests",
        "License",
        "MD5sum",
        "NeedsCompilation",
        "Title",
        "Description",
        "biocViews",
        "Author",
        "Maintainer",
        "git_url",
        "git_branch",
        "git_last_commit",
        "git_last_commit_date",
        "Date/Publication",
        "source.ver",
        "win.binary.ver",
        "mac.binary.ver",
        "mac.binary.big-sur-arm64.ver",
        "vignettes",
        "vignetteTitles",
        "hasREADME",
        "hasNEWS",
        "hasINSTALL",
        "hasLICENSE",
        "Rfiles",
        "dependencyCount",
        "Imports",
        "Enhances",
        "dependsOnMe",
        "suggestsMe",
        "VignetteBuilder",
        "URL",
        "SystemRequirements",
        "BugReports",
        "importsMe",
        "Archs",
        "LinkingTo",
        "PackageStatus",
        "Video",
        "linksToMe",
        "License_restricts_use",
        "OS_type",
        "organism",
        "License_is_FOSS",
        "url_github",
        "url",
        "owner_repo",
        "owner",
        "repo"
      ],
      "rows": 100,
      "table": true,
      "tojson": true
    }
  ],
  "_help": [
    {
      "page": "bioc_r_versions",
      "title": "Bioconductor / R versions",
      "topics": [
        "bioc_r_versions"
      ]
    },
    {
      "page": "biocpkgtools_db",
      "title": "Static Bioc packages list",
      "topics": [
        "biocpkgtools_db"
      ]
    },
    {
      "page": "conda_export",
      "title": "Conda export",
      "topics": [
        "conda_export"
      ]
    },
    {
      "page": "construct_authors",
      "title": "Construct authors",
      "topics": [
        "construct_authors"
      ]
    },
    {
      "page": "construct_conda_yml",
      "title": "Construct a conda yaml",
      "topics": [
        "construct_conda_yml"
      ]
    },
    {
      "page": "construct_cont",
      "title": "Construct containers list",
      "topics": [
        "construct_cont"
      ]
    },
    {
      "page": "construct_runners",
      "title": "Construct runners",
      "topics": [
        "construct_runners"
      ]
    },
    {
      "page": "dt_to_desc",
      "title": "data.table to desc",
      "topics": [
        "dt_to_desc"
      ]
    },
    {
      "page": "fill_description",
      "title": "Fill _DESCRIPTION_",
      "topics": [
        "fill_description"
      ]
    },
    {
      "page": "get_description",
      "title": "Get DESCRIPTION",
      "topics": [
        "get_description"
      ]
    },
    {
      "page": "get_hex",
      "title": "Get hex",
      "topics": [
        "get_hex"
      ]
    },
    {
      "page": "infer_biocviews",
      "title": "Infer biocViews",
      "topics": [
        "infer_biocviews"
      ]
    },
    {
      "page": "infer_deps",
      "title": "Infer dependencies",
      "topics": [
        "infer_deps"
      ]
    },
    {
      "page": "infer_docker_org",
      "title": "Infer Docker registry organisation name",
      "topics": [
        "infer_docker_org"
      ]
    },
    {
      "page": "is_gha",
      "title": "Is GitHub Action",
      "topics": [
        "is_gha"
      ]
    },
    {
      "page": "use_badges",
      "title": "Use badges",
      "topics": [
        "use_badges"
      ]
    },
    {
      "page": "use_codespace",
      "title": "Use Codespace",
      "topics": [
        "use_codespace"
      ]
    },
    {
      "page": "use_dockerfile",
      "title": "Use Dockerfile",
      "topics": [
        "use_dockerfile"
      ]
    },
    {
      "page": "use_issue_template",
      "title": "Use Issue Template",
      "topics": [
        "use_issue_template"
      ]
    },
    {
      "page": "use_readme",
      "title": "Use README",
      "topics": [
        "use_readme"
      ]
    },
    {
      "page": "use_vignette_docker",
      "title": "Use vignette: Docker",
      "topics": [
        "use_vignette_docker"
      ]
    },
    {
      "page": "use_vignette_getstarted",
      "title": "Use vignette: Get started",
      "topics": [
        "use_vignette_getstarted"
      ]
    },
    {
      "page": "use_workflow",
      "title": "Use GitHub Actions workflow",
      "topics": [
        "use_workflow"
      ]
    }
  ],
  "_readme": "https://github.com/neurogenomics/rworkflows/raw/HEAD/README.md",
  "_rundeps": [
    "askpass",
    "badger",
    "BiocManager",
    "cli",
    "clipr",
    "cpp11",
    "crayon",
    "credentials",
    "curl",
    "data.table",
    "desc",
    "digest",
    "dlstats",
    "farver",
    "fs",
    "gert",
    "ggplot2",
    "gh",
    "gitcreds",
    "glue",
    "gtable",
    "here",
    "httr2",
    "ini",
    "isoband",
    "jsonlite",
    "labeling",
    "lifecycle",
    "magrittr",
    "openssl",
    "purrr",
    "R6",
    "rappdirs",
    "RColorBrewer",
    "renv",
    "rlang",
    "rprojroot",
    "rstudioapi",
    "rvcheck",
    "S7",
    "scales",
    "sys",
    "usethis",
    "vctrs",
    "viridisLite",
    "whisker",
    "withr",
    "yaml",
    "yulab.utils",
    "zip"
  ],
  "_vignettes": [
    {
      "source": "bioconductor.Rmd",
      "filename": "bioconductor.html",
      "title": "Bioconductor",
      "author": "Authors: `r auths <- eval(parse(text = gsub('person','c',utils::packageDescription('rworkflows', fields = 'Authors@R'))));paste(auths[names(auths)=='given'],auths[names(auths)=='family'], collapse = ', ')`",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Branch-specific workflows",
        "devel branch",
        "RELEASE_3_17 branch",
        "RELEASE_* branches",
        "Session Info"
      ],
      "created": "2023-09-14 09:48:58",
      "modified": "2026-05-06 09:06:52",
      "commits": 5
    },
    {
      "source": "depgraph.Rmd",
      "filename": "depgraph.html",
      "title": "Dependency graph",
      "author": "Authors: `r auths <- eval(parse(text = gsub('person','c',utils::packageDescription('rworkflows', fields = 'Authors@R'))));paste(auths[names(auths)=='given'],auths[names(auths)=='family'], collapse = ', ')`",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Create",
        "Install required packages",
        "Create graph",
        "Save data",
        "Count stars/clones/views",
        "Show",
        "rworkflow depgraph",
        "Identify highly downloaded packages",
        "Assess R repository usage",
        "Session Info"
      ],
      "created": "2022-12-09 15:06:00",
      "modified": "2026-05-06 09:06:52",
      "commits": 16
    },
    {
      "source": "docker.Rmd",
      "filename": "docker.html",
      "title": "Docker/Singularity Containers",
      "author": "Authors: `r auths <- eval(parse(text = gsub(\"person\",\"c\",utils::packageDescription(\"rworkflows\", fields = \"Authors@R\"))));paste(auths[names(auths)==\"given\"],auths[names(auths)==\"family\"], collapse = \", \")`",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Installation",
        "Method 1: via Docker",
        "NOTES",
        "Method 2: via Singularity",
        "Usage",
        "Session Info"
      ],
      "created": "2022-11-06 19:57:09",
      "modified": "2026-05-06 09:06:52",
      "commits": 9
    },
    {
      "source": "repos.Rmd",
      "filename": "repos.html",
      "title": "Repositories report",
      "author": "Authors: `r auths <- eval(parse(text = gsub('person','c',utils::packageDescription('rworkflows', fields = 'Authors@R'))));paste(auths[names(auths)=='given'],auths[names(auths)=='family'], collapse = ', ')`",
      "engine": "knitr::rmarkdown",
      "headings": [
        "Install required packages",
        "Get all packages per repo",
        "Upset plot",
        "Save results",
        "Session Info"
      ],
      "created": "2022-12-14 05:51:06",
      "modified": "2026-05-06 09:06:52",
      "commits": 10
    },
    {
      "source": "rworkflows.Rmd",
      "filename": "rworkflows.html",
      "title": "Get Started",
      "author": "Authors: `r auths <- eval(parse(text = gsub('person','c',utils::packageDescription('rworkflows', fields = 'Authors@R'))));paste(auths[names(auths)=='given'],auths[names(auths)=='family'], collapse = ', ')`",
      "engine": "knitr::rmarkdown",
      "headings": [
        "GitHub Secrets",
        "use_workflow",
        "dynamic action",
        "static workflow",
        "use_badges",
        "use_dockerfile",
        "Templates",
        "README",
        "Vignette: Get started",
        "Vignette: docker",
        "Adding Python",
        "Using Python",
        "Using conda",
        "Session Info"
      ],
      "created": "2022-11-07 02:15:09",
      "modified": "2026-05-06 09:06:52",
      "commits": 17
    }
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